Submitted SNP(ss) Details: ss5586549

Submitted SNP(ss) Details: ss5586549

Submitter
Handle	SNP500CANCER
Submitter SNP ID	GPX1-28
RefSNP(rs#)	rs3448
Submitted Batch ID	09022003_update
Submitted Date	Oct 31, 2003
Publication Cited	N.D.
First entry to dbSNP	Sep 26 2002 12:00:00:000AM

Resource Links
GenBank Accession	NT_034535.2
Submitted Gene Name	N.D
Submitted Gene ID	N.D.
Submitted SNP Synonyms	N.D
Submitted linkout	GPX1-28

Assay
Species	Homo sapiens
Molecular Type	Genomic
Method	SEQUENCING
Ascertainment Samplesize	204
Population	P1

Allele
Observed Allele	G/A
Ancestral Allele	N.D.
Allele Origin	N/A
SNP Class	SNV
CpG Code	c_g/a

Validation
Validation Status
HWE Goodness of Fit	not applicable

Variation
Frequency Submission	population count: 5
Genotype Summary	population count: 5
Genotype Submission	N.D.
Haplotype	N.D.

Comment

Platform: MGB Eclipse Forward primer: GCA*TTA*GACA*CTTTGGAAGAT, Amount: 100 nM Reverse primer: TCTGGGAGGGAACCTGGATA, Amount: 2000 nM Probe 1: TTAAGCATCTGGCTC Probe 2: TTAAGCGTCTGGC Annealing temperature: 58 C
Platform: TaqMan Forward primer: AGCCAGATGCTTAAG, Amount: 900 nM Reverse primer: CCAGACGCTTAAGTC, Amount: 900 nM Probe 1: GGAAGATGGCATAACCTGTCTCA, Amount: 200 nM Probe 2: TGAGGAGAAAAGAGCACTGTGAATT, Amount: 200 nM Annealing temperature: 60 C

Fasta sequence (Legend)

 AAAGAAAGTG TATTTGGAAA TAAAGTCAGA TGGAAAATTC ATTTTTTAAA TTCCCGTTTT
 GTCACTTTTT CTGATAAAAG ATGGCCATAT TACCCCTTTT CGGCCCCATG TATCTCAGTA
 CCCCATGGAG CTGGGCTAAR TAAATAGGAA TTGGTTTCAC GCCTGAGGCA ATTAGACACT
 TTGGAAGATG GCATAACCTG TCTCACCTGG ACTTAAGC
 R
 TCTGGCTCTA ATTCACAGTG CTCTTTTCTC CTCACTGTAT CCAGGTTCCC TCCCAGAGGA
 GCCACCAGTT CTCATGGGTG GCACTCAGTC TCTCTTCTCT CCAGCTGACT AAACTTTTTT
 CTGTACCAGT TAATTTTTCC AACTACTAAT AGAATAAAGG CAGTTTTCTA AACTTCCTGT
 ATCCTGTTGT TTGTGTTGCT CTCTCCAGGG CTGGGGGTAG GAGGATGCAA GGACT

Submitted Frequency for ss5586549

Population ID -Class	Sample (2n)	Major Allele Freq.	Minor Allele Freq.	Estimated Heterozygosity +/-std.err.	Genotype Freq.	Submitted Hetero- zygosity	Submission Batch	Submitter
CAUC1 - MULTI-NATIONAL	60	G=0.51700002	A=0.48300001	0.499 +/-0.006	A/G=0.50000000 G/G=0.26699999 A/A=0.23300000	0.500	08272003	SNP500CANCER
AFR1 - MULTI-NATIONAL	46	G=0.67400002	A=0.32600001	0.439 +/-0.068	A/G=0.47799999 G/G=0.43500000 A/A=0.08700000	0.478	08272003	SNP500CANCER
PAC1 - MULTI-NATIONAL	46	G=0.95700002	A=0.04300000	0.082 +/-0.077	G/G=0.91299999 A/G=0.08700000 A/A=0.00000000	0.087	08272003	SNP500CANCER
P1 - MULTI-NATIONAL	196	G=0.70899999	A=0.29100001	0.413 +/-0.038	G/G=0.53100002 A/G=0.35699999 A/A=0.11200000	0.357	08272003	SNP500CANCER
HISP1 - MULTI-NATIONAL	44	G=0.75000000	A=0.25000000	0.375 +/-0.092	G/G=0.59100002 A/G=0.31799999 A/A=0.09100000	0.318	08272003	SNP500CANCER

dbSNP summary of Genotypes for ss5586549

No sufficient data to compute Hardy-weinberg probability for ss5586549.

Submitted individual genotype for ss5586549

There is no individual genotype data for ss5586549.

Disclaimer Privacy statement